Crystallographic and spectroscopic studies of d(CCGGTACCGG)

Nucleosides, Nucleotides & Nucleic Acids
S VenkadeshN Gautham

Abstract

The decanucleotide sequence d(CCGGTACCGG) crystallizes as a four-way junction at low cobalt ion concentrations (i.e., 1 mM). When the cobalt concentration in the crystallization solution is increased to 5 mM, the sequence crystallizes as resolved B-DNA duplexes. Gel retardation studies of the decamer show both a faint slow-moving band and a much thicker fast-moving band at low cobalt ion concentrations, and only the intense fast-moving band at higher ion concentration. Circular dichroism (CD) spectroscopy of the decamer indicates a structural transition as the cobalt ion concentration in the solution is increased, probably from B-type to A-type DNA. These studies revealed that the oligomer sequence has several conformations and structures accessible to it, in a manner dependent on sequence, ion concentration, and DNA concentration. [Supplementary materials are available for this article. Go to the publisher's online edition of Nucleosides, Nucleotides & Nucleic Acids for the following free supplemental resources(s): Supplementary Figures 1, 2, and 3.].

References

Oct 5, 1991·Journal of Molecular Biology·Y Timsit, D Moras
Dec 1, 1987·Journal of Biomolecular Structure & Dynamics·R E DickersonP E Pjura
Oct 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·J P Cooper, P J Hagerman
Oct 7, 1988·Cell·D R DuckettD M Lilley
Jun 28, 1972·Biochemical and Biophysical Research Communications·S Arnott, D W Hukins
May 1, 1993·Quarterly Reviews of Biophysics·D M Lilley, R M Clegg
Feb 11, 1993·Nucleic Acids Research·B HartmannR Lavery
Dec 1, 1996·Quarterly Reviews of Biophysics·Y Timsit, D Moras
Jan 1, 1997·Biopolymers·M C Wahl, M Sundaralingam
Oct 3, 1999·Nature Structural Biology·M Ortiz-LombardíaM Coll
Apr 13, 2000·Proceedings of the National Academy of Sciences of the United States of America·B F EichmanP S Ho
Nov 5, 2002·Nature Reviews. Molecular Cell Biology·Peter McGlynn, Robert G Lloyd
Aug 13, 2003·Biochemistry·Franklin A HaysP Shing Ho
Oct 18, 2003·The Journal of Biological Chemistry·Franklin A HaysP Shing Ho
Jun 3, 2004·Nucleic Acids Research·Jeffrey WatsonP Shing Ho
Nov 3, 2004·Nature Reviews. Molecular Cell Biology·Yilun Liu, Stephen C West
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Paul Emsley, Kevin Cowtan
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Alexei A VaginGarib N Murshudov
May 5, 2005·Proceedings of the National Academy of Sciences of the United States of America·Franklin A HaysP Shing Ho
Feb 24, 2006·Biochemistry·Franklin A HaysBorries Demeler
Feb 5, 2009·Nucleic Acids Research·Jaroslav KyprMichaela Vorlícková

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Citations

Nov 2, 2014·Angewandte Chemie·Pradeep K MandalIvan Huc

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